Data Persistence
Objective:
To create a persistent storage for genomic data extracted from Unigene data.
Source files location:
Use the file ../data/unigene, if accessed from your home directory on bicourse.
You may also retrieve the file from this url: unigene
This file is a portion (200 IDs) from the Homo sapiens Unigene data available from
Task:
- Parse the "unigene" file and extract the data associated with the fields ID, TITLE, CHROMOSOME, GENE and EXPRESS
- Create a "DBM" database with this data, using the UNIGENE id as a key.
- Write a simple script to query this database by CHROMOSOME, GENE or EXPRESS. Return the Unigene id and other associated data on each hit.
- The stored data can keep the original upper-lower case. The search should be case insensitive.
Perl modules to use:
- GDBM_File or DB_File
 Important:For testing on a Windows environment, you must use dbmopen since DB_File might not work. These are equivalent: tie %h, "DB_File", $dbFile, O_RDWR|O_CREAT, 0666 || die "Cannot open file $dbFile: $!\n"; untie %h; dbmopen(%h,$dbFile,0666) || die "Cannot open file $dbFile: $!\n"; dbmclose(%h); |